4I3S

Crystal structure of the outer domain of HIV-1 gp120 in complex with VRC-PG04 space group P21

Structural Biology Knowledgebase: 4I3S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.320
  • R-Value Work: 0.248

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4I3S

Classification: Viral Protein / Immune System

Total Structure Weight: 68533.28

Macromolecule Entities
Molecule Chains Length Organism Details
Outer domain of HIV-1 gp120 (KER2018 OD4.2.2) G 190 Human immunodeficiency virus Gene Name(s): env
Heavy chain of VRC-PG04 Fab H 228 Homo sapiens
Light chain of VRC-PG04 Fab L 208 Homo sapiens

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CA
Query on CA

L CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.320
  • R-Value Work: 0.248
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 47.65 α = 90.00
b = 73.47 β = 100.94
c = 109.29 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-26
  • Released Date: 2013-01-09
  • Deposition author(s): Joyce, M.G., Biertumpfel, C., Nabel, G.J., Kwong, P.D.

Revision History

  • 2013-02-13
    Type: Citation | Details: Citation update
  • 2013-01-23
    Type: Citation | Details: Citation update